Array 1 1972-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXVQ01000256.1 Salmonella enterica subsp. enterica serovar Havana strain BCW_2900 NODE_256_length_1998_cov_2.85036, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1971 29 100.0 32 ............................. TCTTATTCCGCCGACGAAATCGCCAAATTTAT 1910 29 100.0 32 ............................. CCGCATTACACGTATTTAATTTATTGCATGAG 1849 29 100.0 32 ............................. CCTCATTCATGCGGCGATGCCATGCTGCTGTG 1788 29 100.0 32 ............................. CCTCGCCGTTAAACGCGTGCGTTGCCACTCCC 1727 29 100.0 32 ............................. TGAGATCGGCAATTGCTCTCTGGAGTTGCCAT 1666 29 100.0 32 ............................. GCCAGACAACAGCAGACACCTACGCAACTGCA 1605 29 100.0 32 ............................. ACAACTTCAAACGGTGATAACCAGGAAATAAT 1544 29 100.0 32 ............................. TTAGCCTCAACGTAAAATCCTGGGCTTTAGGC 1483 29 100.0 32 ............................. ATCGCGTTTTCCCTGGCACTTAAGGAGGTTTA 1422 29 100.0 32 ............................. CTGGACGGTCGGATCGTGGGCAATTATCCGTT 1361 29 100.0 32 ............................. CAGGTTTATTTTCCGCGCGGGCAGGCGCTGGA 1300 29 100.0 32 ............................. TTATCAGCACATAACGGAGAGCGAGGCGCAGT 1239 29 100.0 32 ............................. CGATTTATGTAAAGGGTGGCCTGGAAGGGGAT 1178 29 100.0 32 ............................. ATTATTGATGGTCATCATCGTTTCCTGGGGGC 1117 29 100.0 32 ............................. TTTATGCCGAAGTTAACGGGACAAGAAGCGCA 1056 29 100.0 32 ............................. TGCTGGGACCAGAAAGATCTGTCGCCTGGCGA 995 29 100.0 32 ............................. AATAGCGATATAACCCCCTCTCATAGACAGTT 934 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTCGACGC 872 29 100.0 32 ............................. CGCGGCTGGCTGGATAGCAATCCTGAGCGCCG 811 29 100.0 32 ............................. TTTATGCCAAAGACGGGGATACAGCTTCCGTC 750 29 100.0 32 ............................. GGGGTAGAATAACACCTGATTTTGTTTTGTCA 689 29 100.0 32 ............................. AGTTCAACCGATTTTTTACACAGCGTTCGCAC 628 29 100.0 32 ............................. AGTCCTCTTCTGACCCTTTCCGTTATATCAGT 567 29 100.0 32 ............................. TTTTTTGCGTGCTCCGGTACGCTGAAAATTTC 506 29 100.0 32 ............................. TAATAATTAGCGTTGACGTAAAAGGTAATGTG 445 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 384 29 100.0 32 ............................. TGCCAGCTCATCAGCGCTCATAACGGGCTCCA 323 29 100.0 32 ............................. GATCGTGATTACGCTAAATATTTAATGAGAGG 262 29 100.0 32 ............................. GCCTCTACCACGGAGCAAAAATGATAAGCGCA 201 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 140 29 100.0 32 ............................. CCGTAGCTTGGTTGTGGACTCATCCTAACGGG 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 32 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATTTATCAGAGCATTTTGATAGTAA # Right flank : GATGCCGTACATAGTCCCCATATGGTTTGTGATGTGTTCCCCGCGCCAGCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [36.7-33.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 916-33 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXVQ01000288.1 Salmonella enterica subsp. enterica serovar Havana strain BCW_2900 NODE_288_length_945_cov_2.5873, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 915 29 100.0 32 ............................. TTTGGGGTGCAATTTGTAATGAAATGGTTATT 854 29 100.0 32 ............................. TTTGGTTAGACTGCGTGTTAGTCATAGTTTAA 793 29 100.0 32 ............................. GGGGGCAATGACGATGACGGCGCGGCGAGATG 732 29 96.6 32 ............................C GCTGGCGCGGTCACCTCTTCCCCTTCTGGGGC 671 29 100.0 32 ............................. ATGACTGGTGAGATCGCGTGTGCGGTATACCA 610 29 100.0 32 ............................. GATTTTGTGAACCTGACGGAATTCAGGGCGCA 549 29 100.0 32 ............................. GTTAGTCGCGCCACGGTGGATAAGTTGCTTAA 488 29 100.0 32 ............................. GGCGTTTTATTTGCACCGCTGAATGCCGTGCC 427 29 100.0 32 ............................. TTAAATCATTATGTCCCAACGGTATTTGTAAT 366 29 100.0 32 ............................. CGCTGCCAGCGCTATACGCGCCAGCTCTAACT 305 29 100.0 32 ............................. AGTATCAAACGCGCAGCTGGCGAACATATTGG 244 29 100.0 32 ............................. TTGTTCGGATCAGGATTAAAGCGGGGGTTTCC 183 29 100.0 32 ............................. GAACTATATTGAAATGCTAAATACGGGCCATA 122 29 100.0 32 ............................. AGTTTTTCGCACCGACAAAACCCGATTTAAAG 61 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTTTGCTTTCTGCTGTTTCCCGAACAGCC # Right flank : GCCGTAGCTTGGTTGTGGACAGATCGGAAGAGC # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [23.3-26.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 326-53 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXVQ01000316.1 Salmonella enterica subsp. enterica serovar Havana strain BCW_2900 NODE_316_length_358_cov_1.85763, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 325 29 96.6 32 ............................C ATCACGCCACGCCGCTTAACGGAGGTCGCCCC 264 29 100.0 32 ............................. TTTCATCGTCCAGCCCGGCCTCGCGGCGGGCC 203 29 100.0 32 ............................. GCTGATATCCGCCTGATTGGTGATCTGCGTCG 142 29 100.0 32 ............................. CTCCTGAGAGTTACCTGGGCGAACTGGCCGTG 81 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCTTCGATCATGGCCTGCTGCTCGGCTTGTAC # Right flank : GTCAATAATGTACAGGTTGCCATCAACCCCCATGTGTTCCCAGATCGGAAGAG # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [45.0-23.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 16669-16819 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXVQ01000102.1 Salmonella enterica subsp. enterica serovar Havana strain BCW_2900 NODE_102_length_16864_cov_4.33046, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16669 29 100.0 32 ............................. CAAAATGTGTTGTTATGATGGTAGCCTTCAGA 16730 29 100.0 32 ............................. GCTTGGTAATTACTATGCCGAGCTTATCAAAC 16791 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTAACCCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGATAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : CGTCGATCATGGCCTGCTGCTCGGCTTGTACGGTGTTCCCCGCGC # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 38-249 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXVQ01000327.1 Salmonella enterica subsp. enterica serovar Havana strain BCW_2900 NODE_327_length_274_cov_1.74882, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 38 29 100.0 32 ............................. CGGGCAAATGCCCGCTTTCTTGTTTCTATCAG 99 29 96.6 32 ............T................ TGCCGCCGTCCGGGCGACGGGAATAATGTGGC 160 29 100.0 32 ............................. GCTGGAGCGCAACTGCCAGTGACTACAGAAGC 221 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ================================ ================== 4 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TACCGTAGCTATGACAACTAAAGACGACACAAACCAAG # Right flank : AGCACGCCACAGCGCGTAACTGTCG # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGTCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [36.7-15.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5-217 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXVQ01000340.1 Salmonella enterica subsp. enterica serovar Havana strain BCW_2900 NODE_341_length_219_cov_3.08333, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 ............................. CCTCGCTGGCCGAACAAAACCGCCTGATCGAT 66 29 100.0 32 ............................. ATCACAAGAAAACTTGATACTCGATTATCGCT 127 29 100.0 32 ............................. GCGGTAAACAAATAAACATTTAATTAAATAAT 188 28 79.3 0 ................A.C...-.G.G.A | AT [206] ========== ====== ====== ====== ============================= ================================ ================== 4 29 94.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGAAG # Right flank : CA # Questionable array : NO Score: 5.60 # Score Detail : 1:0, 2:3, 3:0, 4:0.74, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [3.3-3.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 12221-11763 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXVQ01000129.1 Salmonella enterica subsp. enterica serovar Havana strain BCW_2900 NODE_129_length_12227_cov_4.32382, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 12220 29 100.0 32 ............................. ACCCGACACGCGTGCGCGTATTTGAGAATGAC 12159 29 96.6 32 ............................T CGTCGACAAGTTACGACCGGACTTATTCGCGC 12098 29 100.0 32 ............................. GATGACCCGTATACGTTCAAAATCAAAATCTA 12037 29 100.0 32 ............................. ATTGTTGCGCCACCAAAATTTTGAGCGCCACG 11976 29 100.0 32 ............................. CCGACATGGGCAGGATTGCTGACGTTAGTCGA 11915 29 100.0 33 ............................. GCCTCAAGGTCATGCAGGTGAATGTCCCCAGAC 11853 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 11792 29 96.6 0 A............................ | A [11765] ========== ====== ====== ====== ============================= ================================= ================== 8 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATGTT # Right flank : TTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-6.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //